Browse by MODEL: Hybrid

SASDU45 – Calcium/calmodulin-dependent protein kinase type II alpha (CaMKIIα) 6x hub domain

Calcium/calmodulin-dependent protein kinase type II subunit alpha (T354N, E355Q, T412N, I414M, I464H, F467M) experimental SAS data
PYMOL model
Sample: Calcium/calmodulin-dependent protein kinase type II subunit alpha (T354N, E355Q, T412N, I414M, I464H, F467M) 14-mer, 217 kDa Homo sapiens protein
Buffer: 20 mM MES, 150 mM NaCl, 1 mM DTT, pH: 6
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Oct 3
Ligand‐induced CaMKIIα hub Trp403 flip, hub domain stacking, and modulation of kinase activity Protein Science 33(10) (2024)
Narayanan D, Larsen A, Gauger S, Adafia R, Hammershøi R, Hamborg L, Bruus‐Jensen J, Griem‐Krey N, Gee C, Frølund B, Stratton M, Kuriyan J, Kastrup J, Langkilde A, Wellendorph P, Solbak S
RgGuinier 4.7 nm
Dmax 18.0 nm
VolumePorod 329 nm3

SASDV62 – Human Haemoglobin (Sigma-Aldrich) in 100mM Sodium Phosphate buffer, pH=7.0, SEC-SAXS

Hemoglobin subunit alphaHemoglobin subunit betaProtoporphyrin IX containing fe experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Hemoglobin subunit alpha monomer, 15 kDa Homo sapiens protein
Hemoglobin subunit beta monomer, 16 kDa Homo sapiens protein
Protoporphyrin IX containing fe monomer, 1 kDa
Buffer: 100 mM Sodium Phosphate, pH: 7
Experiment: SAXS data collected at Anton Paar SAXSpoint 2.0, Institute of Biotechnology, Czech Academy of Sciences/Centre of Molecular Structure on 2022 May 24
Hemoglobin–PEG Interactions Probed by Small-Angle X-ray Scattering: Insights for Crystallization and Diagnostics Applications The Journal of Physical Chemistry B (2024)
Baranova I, Angelova A, Stransky J, Andreasson J, Angelov B
RgGuinier 2.4 nm
Dmax 6.8 nm
VolumePorod 105 nm3

SASDP49 – BTB domain of CG6765 protein at 1.5 mg/ml

Uncharacterized protein, isoform A experimental SAS data
ALPHAFOLD model
Sample: Uncharacterized protein, isoform A hexamer, 92 kDa Drosophila melanogaster protein
Buffer: 20 mM Tris, pH 7.4, 200 mM NaCl, 1 mM DTT, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2016 Jul 20
The Arthropoda-specific Tramtrack group BTB protein domains use previously unknown interface to form hexamers. Elife 13 (2024)
Bonchuk AN, Balagurov KI, Baradaran R, Boyko KM, Sluchanko NN, Khrustaleva AM, Burtseva AD, Arkova OV, Khalisova KK, Popov VO, Naschberger A, Georgiev PG
RgGuinier 3.7 nm
Dmax 12.7 nm
VolumePorod 166 nm3

SASDP59 – BTB domain of longitudinals lacking (LOLA) protein

Longitudinals lacking protein, isoform G experimental SAS data
ALPHAFOLD model
Sample: Longitudinals lacking protein, isoform G hexamer, 92 kDa Drosophila melanogaster protein
Buffer: 20 mM Tris, pH 7.4, 200 mM NaCl, 1 mM DTT, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2016 Jul 20
The Arthropoda-specific Tramtrack group BTB protein domains use previously unknown interface to form hexamers. Elife 13 (2024)
Bonchuk AN, Balagurov KI, Baradaran R, Boyko KM, Sluchanko NN, Khrustaleva AM, Burtseva AD, Arkova OV, Khalisova KK, Popov VO, Naschberger A, Georgiev PG
RgGuinier 4.1 nm
Dmax 14.5 nm
VolumePorod 189 nm3

SASDSN8 – Pro-Nivolumab, Lu02

Pro-Nivolumab, Lu02 experimental SAS data
AMBER model
Sample: Pro-Nivolumab, Lu02 monomer, 54 kDa protein
Buffer: 20 mM Tris, 100 mM NaCl, pH: 8
Experiment: SAXS data collected at TPS13A, NSRRC on 2022 Sep 8
Integrating molecular dynamics simulation with small- and wide-angle X-ray scattering to unravel the flexibility, antigen-blocking, and protease-restoring functions in a hindrance-based pro-antibody. Protein Sci 33(9):e5124 (2024)
Liao JM, Hong ST, Wang YT, Cheng YA, Ho KW, Toh SI, Shih O, Jeng US, Lyu PC, Hu IC, Huang MY, Chang CY, Cheng TL
RgGuinier 3.0 nm
Dmax 11.5 nm
VolumePorod 69 nm3

SASDTX8 – Streptococcus pyogenes glycine cleavage system H-like protein

Glycine cleavage system H-like protein experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Glycine cleavage system H-like protein monomer, 13 kDa Streptococcus pyogenes serotype … protein
Buffer: 50 mM Tris-HCl, 200 mM NaCl, 1 mM DTT, 5% (v/v) glycerol, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2016 Jul 20
Evolutionary and molecular basis of ADP-ribosylation reversal by zinc-dependent macrodomains Journal of Biological Chemistry :107770 (2024)
Ariza A, Liu Q, Cowieson N, Ahel I, Filippov D, Rack J
RgGuinier 1.5 nm
Dmax 5.0 nm
VolumePorod 22 nm3

SASDTY8 – Streptococcus pyogenes Protein-ADP-ribose hydrolase

Protein-ADP-ribose hydrolase (D13G, Y23S, T61A, I114S, R177H, I246T) experimental SAS data
ALPHAFOLD model
Sample: Protein-ADP-ribose hydrolase (D13G, Y23S, T61A, I114S, R177H, I246T) monomer, 30 kDa Streptococcus pyogenes serotype … protein
Buffer: 50 mM Tris-HCl, 200 mM NaCl, 1 mM DTT, 5% (v/v) glycerol, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2016 Jul 20
Evolutionary and molecular basis of ADP-ribosylation reversal by zinc-dependent macrodomains Journal of Biological Chemistry :107770 (2024)
Ariza A, Liu Q, Cowieson N, Ahel I, Filippov D, Rack J
RgGuinier 2.1 nm
Dmax 7.3 nm
VolumePorod 34 nm3

SASDTZ8 – Streptococcus pyogenes Protein-ADP-ribose hydrolase: glycine cleavage system H-like protein complex

Glycine cleavage system H-like proteinProtein-ADP-ribose hydrolase (D13G, Y23S, T61A, I114S, R177H, I246T) experimental SAS data
ALPHAFOLD model
Sample: Glycine cleavage system H-like protein monomer, 13 kDa Streptococcus pyogenes serotype … protein
Protein-ADP-ribose hydrolase (D13G, Y23S, T61A, I114S, R177H, I246T) monomer, 30 kDa Streptococcus pyogenes serotype … protein
Buffer: 50 mM Tris-HCl, 200 mM NaCl, 1 mM DTT, 5% (v/v) glycerol, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2016 Jul 20
Evolutionary and molecular basis of ADP-ribosylation reversal by zinc-dependent macrodomains Journal of Biological Chemistry :107770 (2024)
Ariza A, Liu Q, Cowieson N, Ahel I, Filippov D, Rack J
RgGuinier 2.4 nm
Dmax 8.4 nm
VolumePorod 53 nm3

SASDVL5 – Small EDRK-rich factor 1 (SERF1a)

Isoform Short of Small EDRK-rich factor 1 experimental SAS data
ROSETTA model
Sample: Isoform Short of Small EDRK-rich factor 1 monomer, 7 kDa Homo sapiens protein
Buffer: Sodium phosphate buffer, pH: 7.4
Experiment: SAXS data collected at TPS13A, NSRRC on 2021 Mar 11
Binding structures of SERF1a with NT17-polyQ peptides of huntingtin exon 1 revealed by SEC-SWAXS, NMR and molecular simulation. IUCrJ (2024)
Lin TC, Shih O, Tsai TY, Yeh YQ, Liao KF, Mansel BW, Shiu YJ, Chang CF, Su AC, Chen YR, Jeng US
RgGuinier 2.4 nm
Dmax 8.0 nm
VolumePorod 9 nm3

SASDVM5 – HTT-3 peptide

HTT3 experimental SAS data
ROSETTA model
Sample: HTT3 monomer, 4 kDa synthetic construct protein
Buffer: Sodium phosphate buffer, pH: 7.4
Experiment: SAXS data collected at TPS13A, NSRRC on 2021 May 20
Binding structures of SERF1a with NT17-polyQ peptides of huntingtin exon 1 revealed by SEC-SWAXS, NMR and molecular simulation. IUCrJ (2024)
Lin TC, Shih O, Tsai TY, Yeh YQ, Liao KF, Mansel BW, Shiu YJ, Chang CF, Su AC, Chen YR, Jeng US
RgGuinier 2.0 nm